Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 100 of 284
Found at i:32803483 original size:20 final size:20
Alignment explanation
Indices: 32803439--32803484 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
32803429 TTTTAGTTAC
32803439 AAATAATTAAATATAAATAT
1 AAATAATTAAATATAAATAT
* *
32803459 TAATAATTATATTATAAATA-
1 AAATAATTA-AATATAAATAT
32803479 AAATAA
1 AAATAA
32803485 ATACACAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATATAAATAT
Found at i:32803622 original size:15 final size:15
Alignment explanation
Indices: 32803602--32803633 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32803592 CTGAACAAGC
32803602 TTTGTTCGTGTTCAG
1 TTTGTTCGTGTTCAG
32803617 TTTGTTCGTGTTCAG
1 TTTGTTCGTGTTCAG
32803632 TT
1 TT
32803634 CGTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTGTTCGTGTTCAG
Found at i:32806684 original size:21 final size:22
Alignment explanation
Indices: 32806658--32806704 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
32806648 CTCTGCTCAA
*
32806658 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
32806679 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
32806701 ACTC
1 ACTC
32806705 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:32820478 original size:24 final size:22
Alignment explanation
Indices: 32820423--32820487 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 22
32820413 TCTCTCTCAC
*
32820423 TTTTTCCTTTC-TTTTTTCATT
1 TTTTTTCTTTCTTTTTTTCATT
32820444 TTTCTTGTCTTTCTTTTTTTCAATCT
1 TTT-TT-TCTTTCTTTTTTTC-AT-T
32820470 TTTTTTCTTGTACTTTTT
1 TTTTTTCTT-T-CTTTTT
32820488 CTTTCAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 3 0.08
22 2 0.06
23 5 0.14
24 11 0.31
25 5 0.14
26 10 0.28
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTTCATT
Found at i:32829019 original size:51 final size:52
Alignment explanation
Indices: 32828941--32829075 Score: 150
Period size: 51 Copynumber: 2.6 Consensus size: 52
32828931 ACGGATACCC
* * *
32828941 AGTGGCCTGCACATAGTAACACCCTTGTAGTCAAAGCTACCTTT-TTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTTTCTTCACAA
* * * **
32828992 AGTGGTCTTCATATAGTACCACACTTGT-GACCAAAGCTGTCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTACCTTTCTTCACAA
* *
32829044 AGTGGCCTTTACATAGTACCTCACTTG-AGTCA
1 AGTGGCCTTCACATAGTACCACACTTGTAGTCA
32829076 CTAGTGACAT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
50 1 0.01
51 36 0.53
52 31 0.46
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (52 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTTTCTTCACAA
Found at i:32836048 original size:48 final size:48
Alignment explanation
Indices: 32835986--32836342 Score: 624
Period size: 48 Copynumber: 7.4 Consensus size: 48
32835976 TATATATGTG
*
32835986 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
32836034 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
32836082 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGACATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
32836130 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
32836178 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
32836226 CGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGTTATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
32836274 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
32836322 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
32836343 GTGATTCGGC
Statistics
Matches: 295, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 295 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:32836565 original size:37 final size:37
Alignment explanation
Indices: 32836515--32836654 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
32836505 GGAAATATAT
*
32836515 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
32836552 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
32836589 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
32836626 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
32836655 GGACTATTCG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:32839244 original size:45 final size:45
Alignment explanation
Indices: 32839180--32839270 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
32839170 GAACTATGTG
* * *
32839180 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGAC
1 ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
* *
32839225 ATCTGAGCTCATGGAGTTGTGGTATGAGTTCATGATGTATACGAC
1 ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
32839270 A
1 A
32839271 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (45 bp):
ATCTGAACTCATGGAGTTGTGGTATGAGTTCATGATATATACGAC
Found at i:32855851 original size:22 final size:22
Alignment explanation
Indices: 32855826--32855873 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
32855816 CAGCACAGGT
32855826 GTGTCCCTTAGACCACACGGGC
1 GTGTCCCTTAGACCACACGGGC
*
32855848 GTGTCCCTTGGACCACACGGGC
1 GTGTCCCTTAGACCACACGGGC
32855870 GTGT
1 GTGT
32855874 GAGCCCTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (22 bp):
GTGTCCCTTAGACCACACGGGC
Found at i:32860877 original size:19 final size:17
Alignment explanation
Indices: 32860853--32860887 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
32860843 TTAGCTGCAA
32860853 CAAAAACAAAGAAAAAAAC
1 CAAAAA-AAA-AAAAAAAC
32860872 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
32860888 AAAGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAC
Found at i:32860888 original size:19 final size:19
Alignment explanation
Indices: 32860853--32860889 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32860843 TTAGCTGCAA
* *
32860853 CAAAAACAAAGAAAAAAAC
1 CAAAAAAAAAAAAAAAAAC
32860872 CAAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAA
32860890 AGAAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAAAAAAAAAC
Found at i:32874300 original size:12 final size:13
Alignment explanation
Indices: 32874277--32874335 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
32874267 TTAGTAGCAA
32874277 TATTTTTAAAAAG
1 TATTTTTAAAAAG
*
32874290 TATTTTTAAAAGG
1 TATTTTTAAAAAG
* * *
32874303 TGTTATGAAAAAG
1 TATTTTTAAAAAG
* *
32874316 TACTTTTAAGAAG
1 TATTTTTAAAAAG
32874329 TACTTTT
1 TA-TTTT
32874336 CACAAGTTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
13 31 0.91
14 3 0.09
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (13 bp):
TATTTTTAAAAAG
Found at i:32874431 original size:19 final size:22
Alignment explanation
Indices: 32874390--32874432 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 22
32874380 ATGTCTATTT
*
32874390 TAAATATGATATTATCAAGTAA
1 TAAATATGATATTATCAAATAA
32874412 TAAATAT-ATATT-T-AAATAA
1 TAAATATGATATTATCAAATAA
32874431 TA
1 TA
32874433 TTTAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 5 0.25
22 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATATGATATTATCAAATAA
Found at i:32875891 original size:28 final size:28
Alignment explanation
Indices: 32875847--32875910 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
32875837 GTAGTTTCTG
*
32875847 AAAAAATAAATTAGAGAAGACGTATCTA
1 AAAAAATAAATTAGAGAAAACGTATCTA
* * * *
32875875 AAAAAATAATTTTGAGAAAATGTTTCTA
1 AAAAAATAAATTAGAGAAAACGTATCTA
*
32875903 AACAAATA
1 AAAAAATA
32875911 GTGTCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (28 bp):
AAAAAATAAATTAGAGAAAACGTATCTA
Found at i:32876008 original size:126 final size:126
Alignment explanation
Indices: 32875875--32876500 Score: 905
Period size: 126 Copynumber: 5.0 Consensus size: 126
32875865 GACGTATCTA
* * * * *
32875875 AAAAAATAATTTTGAGAAAATGTTTCTAAACAAATAGTGTCAAAAACGCTTTAAGGAAGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
32875940 TATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAGTAGTTTTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAGTAGTTTCTG
* ** *
32876001 AAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAAAACTTTAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
32876066 TGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACGCTT-TTTTTCTACAATAGTTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACG-TTCTTTTTCTACAGTAGTTTCTG
* * * *
32876127 AAAAAGTAATTTTGAGAAGATGTTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAAGATGTAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
32876192 TGTCAACAAAAGTATTGAAAAGAGCTCCCATGTGGACGCTT-TTTTTCTACAGTAGTTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACG-TTCTTTTTCTACAGTAGTTTCTG
* * * * *
32876253 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTAAAAAATGCTTCAAGTAGGATACAG
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
32876318 TGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAGTTTTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAGTAGTTTCTG
* *
32876379 AAAAAATAATTTTGAAAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAT
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* **
32876444 TGTCAGCAAAAATACTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTT
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAGTAGTT
32876501 CCTATTTGGC
Statistics
Matches: 452, Mismatches: 46, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 1 0.00
126 449 0.99
127 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAGTAGTTTCTG
Found at i:32879632 original size:54 final size:54
Alignment explanation
Indices: 32879513--32879638 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
32879503 ATGTTGCATT
* *
32879513 ATTTATATTTTATTAAAAATATAAAAATATTCAAAATATTACTTTATTTAAAAGAA
1 ATTT-TATTTTATTAAAAATATAAAAAAATT-AAAATATTACTTTATTCAAAAGAA
* * * *
32879569 CTTCTATTTTATTAAAAATATAAAAGTAAATT-ACA-ATTACTTTATTCAAAATAA
1 ATTTTATTTTATTAAAAATATAAAA--AAATTAAAATATTACTTTATTCAAAAGAA
32879623 ATTTTATTTTATTAAA
1 ATTTTATTTTATTAAA
32879639 TGAAATAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 31 0.52
55 23 0.38
56 2 0.03
57 4 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (54 bp):
ATTTTATTTTATTAAAAATATAAAAAAATTAAAATATTACTTTATTCAAAAGAA
Found at i:32879798 original size:21 final size:22
Alignment explanation
Indices: 32879757--32879821 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 22
32879747 CCTTTGTCTA
* *
32879757 GCTTTCGGCAAGGG-TTGTGGTT
1 GCTTCCGGCAGGGGATT-TGGTT
32879779 GC-TCCGGC-GGGGATTCTGGTT
1 GCTTCCGGCAGGGGATT-TGGTT
*
32879800 -CTTCTGGCAGGGGATTTGGTT
1 GCTTCCGGCAGGGGATTTGGTT
32879821 G
1 G
32879822 TGGATGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 22 0.63
22 9 0.26
ACGTcount: A:0.08, C:0.17, G:0.42, T:0.34
Consensus pattern (22 bp):
GCTTCCGGCAGGGGATTTGGTT
Found at i:32880175 original size:30 final size:29
Alignment explanation
Indices: 32880160--32880238 Score: 113
Period size: 30 Copynumber: 2.7 Consensus size: 29
32880150 ACTGTGTGAC
32880160 CGCTGTTGATGGGCCTGGTGATTGTATGGG
1 CGCTGTTGATGGGCC-GGTGATTGTATGGG
* *
32880190 CGCTGTTGGTGGGCACGGTGATTGTCTGGG
1 CGCTGTTGATGGGC-CGGTGATTGTATGGG
*
32880220 CGCTGTTGATGAGCCGGTG
1 CGCTGTTGATGGGCCGGTG
32880239 TCATTATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.11
30 38 0.86
31 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.30
Consensus pattern (29 bp):
CGCTGTTGATGGGCCGGTGATTGTATGGG
Found at i:32880736 original size:7 final size:7
Alignment explanation
Indices: 32880724--32880762 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
32880714 TATTAGTTAT
32880724 ATACTAA
1 ATACTAA
32880731 ATACTAA
1 ATACTAA
32880738 ATACTAA
1 ATACTAA
32880745 ATACTAA
1 ATACTAA
32880752 ATACTAA
1 ATACTAA
32880759 ATAC
1 ATAC
32880763 GATTTGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:32881927 original size:11 final size:11
Alignment explanation
Indices: 32881911--32881953 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
32881901 AAAAAAGAGC
32881911 TTTGAGAGGAA
1 TTTGAGAGGAA
*
32881922 TTTGAGAGAAA
1 TTTGAGAGGAA
32881933 TTTGAGA-GAA
1 TTTGAGAGGAA
*
32881943 TATTGAAAGGA
1 T-TTGAGAGGA
32881954 TTGAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 22 0.81
12 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:32881969 original size:16 final size:17
Alignment explanation
Indices: 32881948--32881983 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
32881938 GAGAATATTG
32881948 AAAGGATTGAAGTGT-A
1 AAAGGATTGAAGTGTGA
32881964 AAAGGATTGAAGTGTGA
1 AAAGGATTGAAGTGTGA
32881981 AAA
1 AAA
32881984 AAATGGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (17 bp):
AAAGGATTGAAGTGTGA
Found at i:32885865 original size:68 final size:67
Alignment explanation
Indices: 32885793--32885942 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
32885783 CATCATGTGT
* * * *
32885793 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
32885855 ATGTAG
62 ATGTAG
** * *
32885861 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
32885926 AG
66 AG
32885928 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
32885943 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:32885898 original size:64 final size:64
Alignment explanation
Indices: 32885817--32886000 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
32885807 AGACATTATG
* *
32885817 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
32885881 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
32885946 AA
63 AA
* * * *
32885948 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
32886001 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:32892395 original size:22 final size:23
Alignment explanation
Indices: 32892369--32892414 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
32892359 CAACCAAACC
32892369 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
32892391 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
32892414 A
1 A
32892415 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:32892420 original size:23 final size:23
Alignment explanation
Indices: 32892376--32892420 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32892366 ACCAATTCAA
*
32892376 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
32892399 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
32892421 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:32895159 original size:331 final size:331
Alignment explanation
Indices: 32894557--32895217 Score: 1304
Period size: 331 Copynumber: 2.0 Consensus size: 331
32894547 AGAAAAAGGC
* *
32894557 AAGGATTAACTCACTTGGTGCAAAAATTATGGAATACCAGCTTAGAGAACCCTCCTATGGCATTT
1 AAGGATTAACTCACTTGGTGAAAAAATTATGGAATAACAGCTTAGAGAACCCTCCTATGGCATTT
32894622 TTATCTGCTGGAATTGAAGAGAAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGTTTTA
66 TTATCTGCTGGAATTGAAGAGAAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGTTTTA
32894687 TTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCTTGCTGATTTCATGC
131 TTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCTTGCTGATTTCATGC
32894752 CTTTGTCGTCCAGCCCAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACAC
196 CTTTGTCGTCCAGCCCAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACAC
32894817 TTAAGCTATTTAATCATCCCATCCACTTTTACACCTTTTACAATTTAGTCCTTTTTATTTAGTCA
261 TTAAGCTATTTAATCATCCCATCCACTTTTACACCTTTTACAATTTAGTCCTTTTTATTTAGTCA
32894882 ACTATT
326 ACTATT
32894888 AAGGATTAACTCACTTGGTGAAAAAATTATGGAATAACAGCTTAGAGAACCCTCCTATGGCATTT
1 AAGGATTAACTCACTTGGTGAAAAAATTATGGAATAACAGCTTAGAGAACCCTCCTATGGCATTT
32894953 TTATCTGCTGGAATTGAAGAGAAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGTTTTA
66 TTATCTGCTGGAATTGAAGAGAAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGTTTTA
32895018 TTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCTTGCTGATTTCATGC
131 TTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCTTGCTGATTTCATGC
32895083 CTTTGTCGTCCAGCCCAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACAC
196 CTTTGTCGTCCAGCCCAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACAC
32895148 TTAAGCTATTTAATCATCCCATCCACTTTTACACCTTTTACAATTTAGTCCTTTTTATTTAGTCA
261 TTAAGCTATTTAATCATCCCATCCACTTTTACACCTTTTACAATTTAGTCCTTTTTATTTAGTCA
32895213 ACTAT
326 ACTAT
32895218 CCAAACATTA
Statistics
Matches: 328, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
331 328 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (331 bp):
AAGGATTAACTCACTTGGTGAAAAAATTATGGAATAACAGCTTAGAGAACCCTCCTATGGCATTT
TTATCTGCTGGAATTGAAGAGAAATGAAGAGAAATCTAGATATTTCCTATTTAGTCCTAGTTTTA
TTTAGTTAATTTTGCAATATTCCAATTTTGCCCTTAATTTATCAATTTTCTTGCTGATTTCATGC
CTTTGTCGTCCAGCCCAAATAAATTTTGGGTCTAATTGCCTTTTAAATCCTCTCTCATTAGACAC
TTAAGCTATTTAATCATCCCATCCACTTTTACACCTTTTACAATTTAGTCCTTTTTATTTAGTCA
ACTATT
Found at i:32895302 original size:83 final size:83
Alignment explanation
Indices: 32895198--32895362 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 83
32895188 CAATTTAGTC
* *
32895198 CTTTTTATTTAGTCAACTATCCAAACATTAAAATTTCCTAACGAATTTTTAATACCACATTACTA
1 CTTTTTATTTAATCAACTATCCAAACATTAAAATTTCCTAACGAAATTTTAATACCACATTACTA
*
32895263 GCATTTCATAAATATTTT
66 ACATTTCATAAATATTTT
*
32895281 CTTTTTATTTAATTAACTATCCAAACATTAAAATTTCCTAACGAAATTTTAATACCACATTACTA
1 CTTTTTATTTAATCAACTATCCAAACATTAAAATTTCCTAACGAAATTTTAATACCACATTACTA
32895346 ACATTTCATAAATATTT
66 ACATTTCATAAATATTT
32895363 ATAAAATTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (83 bp):
CTTTTTATTTAATCAACTATCCAAACATTAAAATTTCCTAACGAAATTTTAATACCACATTACTA
ACATTTCATAAATATTTT
Found at i:32900596 original size:22 final size:23
Alignment explanation
Indices: 32900570--32900627 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
32900560 CAACCAAACC
32900570 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
32900592 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
*
32900615 ACTTCATCACATA
1 AATTCAT-ACATA
32900628 CCTAAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.20
23 19 0.63
24 5 0.17
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:32903455 original size:5 final size:5
Alignment explanation
Indices: 32903445--32903472 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32903435 CAAACTGTGA
32903445 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
32903473 GAACATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:32906614 original size:40 final size:40
Alignment explanation
Indices: 32906536--32906759 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
32906526 ACCCAAGTAT
* *
32906536 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * **
32906575 CTTCGAGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
32906615 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
32906655 CTTCGGGACTTAGCCC-GAGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGCAACTA---GCACAAATGC
* *
32906698 CTTCGGGACTTAGCTCGGATATAGCAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
32906738 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
32906760 CATCCGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:32906732 original size:83 final size:79
Alignment explanation
Indices: 32906536--32906759 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 79
32906526 ACCCAAGTAT
* * * *
32906536 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGAGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
32906601 ACTAGCATGAATGC
66 ACTAGCACAAATGC
32906615 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCC-GAGTATA
1 CTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATA
32906678 G-CAACTACTCGCACAAATGC
63 GTC-ACTA---GCACAAATGC
*
32906698 CTTCGGGACTTAGCTCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGC-CGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
32906760 CATCCGAATA
Statistics
Matches: 128, Mismatches: 7, Indels: 16
0.85 0.05 0.11
Matches are distributed among these distances:
79 15 0.12
80 46 0.36
81 1 0.01
82 2 0.02
83 62 0.48
84 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:32911671 original size:27 final size:27
Alignment explanation
Indices: 32911641--32911696 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
32911631 ATAATATATT
* * *
32911641 AATGTATAAAAAAACAAACAGATAAAG
1 AATGAATAAAAAAACAAAAAGAGAAAG
* *
32911668 AATGAATAAATAAAGAAAAAGAGAAAG
1 AATGAATAAAAAAACAAAAAGAGAAAG
32911695 AA
1 AA
32911697 AGGTGGAAGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.70, C:0.04, G:0.14, T:0.12
Consensus pattern (27 bp):
AATGAATAAAAAAACAAAAAGAGAAAG
Found at i:32916716 original size:55 final size:55
Alignment explanation
Indices: 32916632--32916738 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 55
32916622 AGTTATTGTT
* * *
32916632 GTACACGGGTAGGCCACACTGGTGTGTGCCATGGCTATGTC-TTAAAGTCAGTATC
1 GTACACGGGCAGGCCACACGGGTGTGTGCCATGGCCATG-CATTAAAGTCAGTATC
*
32916687 GTACACGGGCAGGTCACACGGGTGTGTGCCATGGCCATGCATTAAAGTCAGT
1 GTACACGGGCAGGCCACACGGGTGTGTGCCATGGCCATGCATTAAAGTCAGT
32916739 GTTGCACATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 46 0.98
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (55 bp):
GTACACGGGCAGGCCACACGGGTGTGTGCCATGGCCATGCATTAAAGTCAGTATC
Found at i:32924485 original size:13 final size:13
Alignment explanation
Indices: 32924467--32924505 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
32924457 AAGTAATCGT
32924467 ACACGGGAGTGTC
1 ACACGGGAGTGTC
32924480 ACACGGGCA-TGTC
1 ACACGGG-AGTGTC
*
32924493 ACACGGGTGTGTC
1 ACACGGGAGTGTC
32924506 CCTGTCGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.18
Consensus pattern (13 bp):
ACACGGGAGTGTC
Found at i:32929210 original size:29 final size:29
Alignment explanation
Indices: 32929177--32929236 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
32929167 GATGTGCCTT
32929177 TTAATTTCGATCAAAAGTGTTTAGAAGCA
1 TTAATTTCGATCAAAAGTGTTTAGAAGCA
32929206 TTAATTTCGATCAAAAGTGTTTAGAAGCA
1 TTAATTTCGATCAAAAGTGTTTAGAAGCA
32929235 TT
1 TT
32929237 TAACACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (29 bp):
TTAATTTCGATCAAAAGTGTTTAGAAGCA
Found at i:32931257 original size:13 final size:13
Alignment explanation
Indices: 32931239--32931263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32931229 GGGATGAAAC
32931239 ACGACCGTGTGAT
1 ACGACCGTGTGAT
32931252 ACGACCGTGTGA
1 ACGACCGTGTGA
32931264 AAACAGGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACGACCGTGTGAT
Found at i:32936326 original size:12 final size:12
Alignment explanation
Indices: 32936311--32936336 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32936301 ACGGTCTGGC
32936311 ACACAGGCTGCG
1 ACACAGGCTGCG
32936323 ACACAGGCTGCG
1 ACACAGGCTGCG
32936335 AC
1 AC
32936337 GCGGCTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.31, T:0.08
Consensus pattern (12 bp):
ACACAGGCTGCG
Found at i:32937339 original size:23 final size:23
Alignment explanation
Indices: 32937313--32937366 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
32937303 AGCGTGCTTA
* * *
32937313 TGAATTTAGCACTTTAGTGCTCC
1 TGAATTTAACACTTCAGTGCACC
** *
32937336 TGAAACTAACACTTCGGTGCACC
1 TGAATTTAACACTTCAGTGCACC
32937359 TGAATTTA
1 TGAATTTA
32937367 TAATTTGCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAATTTAACACTTCAGTGCACC
Found at i:32942432 original size:28 final size:27
Alignment explanation
Indices: 32942387--32942441 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
32942377 GCTTACCTCC
* *
32942387 GTGTTTACTATTCGAACAAACTTCATCT
1 GTGTTTACTATCCCAACAAACTT-ATCT
32942415 GTGTTTACTATCCCAACAAACTTATCT
1 GTGTTTACTATCCCAACAAACTTATCT
32942442 CTGCGAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
GTGTTTACTATCCCAACAAACTTATCT
Found at i:32951025 original size:216 final size:207
Alignment explanation
Indices: 32950651--32951129 Score: 796
Period size: 216 Copynumber: 2.3 Consensus size: 207
32950641 TCATATGTTA
* * *
32950651 TTAAAATGCATACTTTATCTGGATGAAGTATGTATTAGTAGATTTACTAATATGATTATATATAT
1 TTAAAATGCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATAT
* *
32950716 ATATTTACGCATGTATCACATTACAAAAAAAAAATTAAATACTTATACCTAATAAAACATGTATC
66 ATATTCACGCATGTATCACATTACAAAAAAAAAATTAAATACTTATACATAATAAAACATGTATC
32950781 TCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAT
131 TCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAT
32950846 TTTAATTTAATT
196 TTTAATTTAATT
* *
32950858 TTAACAATACATACTTTACCAGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATA
1 TTAA-AATGCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATA
32950923 TATATATACACACACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATACATAATAAA
65 TATAT-T-----CACGCATGTATCACATTACAAAAA-AAAAA-TTAAATACTTATACATAATAAA
32950988 ACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
122 ACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
32951053 ATTTAATATTTTAATTTAATT
187 ATTTAATATTTTAATTTAATT
*
32951074 TTAATAATGCATACTTTACCTGGATGAAGTATGTATTAGCAAATTCACTAATATGA
1 TTAA-AATGCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGA
32951130 CATTACAAAA
Statistics
Matches: 252, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
207 4 0.02
208 60 0.24
209 1 0.00
214 23 0.09
215 5 0.02
216 159 0.63
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (207 bp):
TTAAAATGCATACTTTACCTGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATAT
ATATTCACGCATGTATCACATTACAAAAAAAAAATTAAATACTTATACATAATAAAACATGTATC
TCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAT
TTTAATTTAATT
Found at i:32952684 original size:12 final size:12
Alignment explanation
Indices: 32952667--32952699 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
32952657 CGACCCGCTC
32952667 ATATTAATTTTT
1 ATATTAATTTTT
32952679 ATATT-ATTTTT
1 ATATTAATTTTT
32952690 ATA-TAATTTT
1 ATATTAATTTT
32952700 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:32952859 original size:30 final size:30
Alignment explanation
Indices: 32952823--32952885 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
32952813 ATTTAAGAAG
32952823 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
32952853 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
32952883 CAA
1 CAA
32952886 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:32955754 original size:22 final size:22
Alignment explanation
Indices: 32955729--32955772 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32955719 TCAAATTGAC
32955729 TAGTAATAGGAATAGGAAGACT
1 TAGTAATAGGAATAGGAAGACT
32955751 TAGTAATAGGAATAGGAAGACT
1 TAGTAATAGGAATAGGAAGACT
32955773 CAAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.27, T:0.23
Consensus pattern (22 bp):
TAGTAATAGGAATAGGAAGACT
Found at i:32961269 original size:96 final size:96
Alignment explanation
Indices: 32961159--32961350 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
32961149 TTTAAGGCCT
32961159 CCTAAATAATAATCCGTAGAAATTTCATACTAATTGCTTCTAGAACCCAAGTTTTGCAATTTATT
1 CCTAAATAATAATCCGTAGAAATTTCATACTAATTGCTTCTAGAACCCAAGTTTTGCAATTTATT
32961224 CAATTTGGTCCTTAATTTACAATTGGACACC
66 CAATTTGGTCCTTAATTTACAATTGGACACC
32961255 CCTAAATAATAATCCGTAGAAATTTCATACTAATTGCTTCTAGAACCCAAGTTTTGCAATTTATT
1 CCTAAATAATAATCCGTAGAAATTTCATACTAATTGCTTCTAGAACCCAAGTTTTGCAATTTATT
*
32961320 CAATTTGGTCCTTAATTTCCAATTGGACACC
66 CAATTTGGTCCTTAATTTACAATTGGACACC
32961351 TTATACTTAA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (96 bp):
CCTAAATAATAATCCGTAGAAATTTCATACTAATTGCTTCTAGAACCCAAGTTTTGCAATTTATT
CAATTTGGTCCTTAATTTACAATTGGACACC
Found at i:32963273 original size:46 final size:46
Alignment explanation
Indices: 32963145--32963306 Score: 157
Period size: 46 Copynumber: 3.5 Consensus size: 46
32963135 CGTGTGCCAA
* * * * * * *
32963145 TGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTACGAGAGCTAC
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAAAGCTAG
* * * *
32963191 TGTAAGAAATGTCTGGGACATGCA-CCGACTTTGAGATGAAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAG-CCTCGAGATGAAAGCTAG
*
32963237 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT-GA-AAGCTAG
*
32963285 TGTAAGACCTGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
32963307 GCGTCAGCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 61 0.64
47 4 0.04
48 28 0.29
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAAAGCTAG
Found at i:32965713 original size:65 final size:66
Alignment explanation
Indices: 32965572--32965730 Score: 169
Period size: 65 Copynumber: 2.4 Consensus size: 66
32965562 CCGATGGACC
* * * * **
32965572 TTTCCTTTTCTAGTTGTACACCCGAGGTGCACATTCCCTTTTCAAGTTGTACACACGAAGTGTAC
1 TTTCCTTTTCAAGTTGTACACACAAAGTGCACATAACCTTTTCAAGTTGTACACACGAAGTGTAC
32965637 A
66 A
** * * *
32965638 TACCCTTTTCAATTTGTACACACAAAGTGTACATAACCTTTTCAAG-TGTACACA-TATAGTGTA
1 TTTCCTTTTCAAGTTGTACACACAAAGTGCACATAACCTTTTCAAGTTGTACACACGA-AGTGTA
*
32965701 CT
65 CA
* *
32965703 TTTCCTTTTCAAGTGGTATACACAAAGT
1 TTTCCTTTTCAAGTTGTACACACAAAGT
32965731 ATACCTTTCC
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 1 0.01
65 38 0.51
66 36 0.48
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (66 bp):
TTTCCTTTTCAAGTTGTACACACAAAGTGCACATAACCTTTTCAAGTTGTACACACGAAGTGTAC
A
Found at i:32965745 original size:33 final size:33
Alignment explanation
Indices: 32965574--32965747 Score: 163
Period size: 33 Copynumber: 5.3 Consensus size: 33
32965564 GATGGACCTT
* * * * *
32965574 TCCTTTTCTAGTTGTACACCCGAGGTGCACAT-
1 TCCTTTTCAAGTTGTACACACAAAGTGTACATA
*
32965606 TCCCTTTTCAAGTTGTACACACGAAGTGTACATA
1 T-CCTTTTCAAGTTGTACACACAAAGTGTACATA
* *
32965640 CCCTTTTCAATTTGTACACACAAAGTGTACATA
1 TCCTTTTCAAGTTGTACACACAAAGTGTACATA
* * * * *
32965673 ACCTTTTCAAG-TGTACACATATAGTGTACTTT
1 TCCTTTTCAAGTTGTACACACAAAGTGTACATA
* * * * *
32965705 TCCTTTTCAAGTGGTATACACAAAGTATACCTT
1 TCCTTTTCAAGTTGTACACACAAAGTGTACATA
32965738 TCCTTTTCAA
1 TCCTTTTCAA
32965748 TACCACCCTT
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
32 28 0.24
33 91 0.76
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (33 bp):
TCCTTTTCAAGTTGTACACACAAAGTGTACATA
Found at i:32966711 original size:62 final size:62
Alignment explanation
Indices: 32966614--32966742 Score: 240
Period size: 62 Copynumber: 2.1 Consensus size: 62
32966604 TTTCCATGTA
32966614 TTTTATGGAGATGAAGATGATATAAAATGAGTTTAATTCTAATTAATCATTTATCATACTTT
1 TTTTATGGAGATGAAGATGATATAAAATGAGTTTAATTCTAATTAATCATTTATCATACTTT
*
32966676 TTTTATGGAGATGAAGATGATATAAAATGAGTTTAATTCTATTTAATCATTTATCATACTTT
1 TTTTATGGAGATGAAGATGATATAAAATGAGTTTAATTCTAATTAATCATTTATCATACTTT
*
32966738 ATTTA
1 TTTTA
32966743 ATTCAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (62 bp):
TTTTATGGAGATGAAGATGATATAAAATGAGTTTAATTCTAATTAATCATTTATCATACTTT
Found at i:32975630 original size:13 final size:13
Alignment explanation
Indices: 32975612--32975637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32975602 ATTAAAAAAA
32975612 TTTAAATTTTATC
1 TTTAAATTTTATC
32975625 TTTAAATTTTATC
1 TTTAAATTTTATC
32975638 CAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAAATTTTATC
Found at i:32976111 original size:117 final size:115
Alignment explanation
Indices: 32975929--32976148 Score: 257
Period size: 117 Copynumber: 1.9 Consensus size: 115
32975919 AGTTTCAAAC
* * * * *
32975929 TAAACATTTCATTATTTATTGTATTTATTTTAAAACACATCTCTGTGTGTTAATTACGTGGTTTT
1 TAAACATTTCATTATTTATTATATTTATTTTAAAACACACCTCTGTGTGTTAAATACATGATTTT
*
32975994 CATATGCTACACGTGTCAT-AT-AATTTCTAGTTATTATTATTAGCTTTAAGA
66 CATACG-TACACGTGT-ATGATAAATTTCTAG-TATTATTATTAGCTTTAAGA
* * * * *
32976045 TAAATATTTTATTATTTATTATATGTTATTTTAAAATATACCTCTGTGT-TCTAAATATATGATT
1 TAAACATTTCATTATTTATTATAT-TTATTTTAAAACACACCTCTGTGTGT-TAAATACATGATT
*
32976109 TTCATACGTATACGTGTATGATAGAATTTCTAGTATTATT
64 TTCATACGTACACGTGTATGATA-AATTTCTAGTATTATT
32976149 TAAAAAAAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
115 2 0.02
116 32 0.37
117 44 0.51
118 9 0.10
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (115 bp):
TAAACATTTCATTATTTATTATATTTATTTTAAAACACACCTCTGTGTGTTAAATACATGATTTT
CATACGTACACGTGTATGATAAATTTCTAGTATTATTATTAGCTTTAAGA
Found at i:32976804 original size:12 final size:12
Alignment explanation
Indices: 32976787--32976816 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
32976777 AAAGTAATTT
32976787 AATTTTAAAATG
1 AATTTTAAAATG
32976799 AATTTTAAAATG
1 AATTTTAAAATG
32976811 AATTTT
1 AATTTT
32976817 TGTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
AATTTTAAAATG
Found at i:32976992 original size:21 final size:21
Alignment explanation
Indices: 32976966--32977029 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
32976956 TTTGTAACTT
32976966 TAAATTAAATATTAAAATTAA
1 TAAATTAAATATTAAAATTAA
* *
32976987 TAAATTAATTAATGAAAAATATAA
1 TAAATTAAAT-AT-TAAAAT-TAA
*
32977011 T-AGTTAAA-ATTAAAATTAA
1 TAAATTAAATATTAAAATTAA
32977030 GTTGATGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 11 0.31
22 2 0.06
23 10 0.29
24 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TAAATTAAATATTAAAATTAA
Found at i:32985807 original size:26 final size:26
Alignment explanation
Indices: 32985778--32985830 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
32985768 TGGTGAAACC
*
32985778 TTATGGAGAAGAAGATTTTTTCTTTT
1 TTATGGAGAAGAAGATGTTTTCTTTT
*
32985804 TTATGGAGAATAAGATGTTTTCTTTT
1 TTATGGAGAAGAAGATGTTTTCTTTT
32985830 T
1 T
32985831 CTTTTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (26 bp):
TTATGGAGAAGAAGATGTTTTCTTTT
Found at i:32989407 original size:105 final size:102
Alignment explanation
Indices: 32989222--32989419 Score: 233
Period size: 105 Copynumber: 1.9 Consensus size: 102
32989212 GAATTGACAA
*
32989222 TAAGACCATGGTAGGACCATGGCAAAGTGTTAAATGTAAGACCATAGATGGGCTATGGCATTTCA
1 TAAGACCATGGTAGGACCATGGCAAAGTATTAAATGTAAGACCATAGATGGGCTATGGCATTTCA
**
32989287 GTGTAAAGATGATAACTAGG-TTATGGCATCGTGAACG
66 GTGTAAAGACCATAACT-GGATTATGGCATCGTGAACG
* * *
32989324 TAAGACCATGGTTGGACCATGGCAGTA-TATATACAAGTGTAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATGGTAGGACCATGGCA-AAGTAT-TA-AA-TGTAAGACCATAGATGGGCTATGGCAT
* *
32989388 CTTGA-TG-ATAAGGCCATAACTGGATTATGGCA
62 -TTCAGTGTA-AAGACCATAACTGGATTATGGCA
32989420 CTACGAGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
102 25 0.31
103 3 0.04
104 5 0.06
105 45 0.56
106 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (102 bp):
TAAGACCATGGTAGGACCATGGCAAAGTATTAAATGTAAGACCATAGATGGGCTATGGCATTTCA
GTGTAAAGACCATAACTGGATTATGGCATCGTGAACG
Found at i:32992432 original size:17 final size:17
Alignment explanation
Indices: 32992406--32992444 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32992396 ATATATTATT
* *
32992406 TTATATATTATTTTTAC
1 TTATAAATTATATTTAC
*
32992423 TTATAAATTATATTTAT
1 TTATAAATTATATTTAC
32992440 TTATA
1 TTATA
32992445 TATTTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAAATTATATTTAC
Found at i:32992451 original size:13 final size:13
Alignment explanation
Indices: 32992395--32992464 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 13
32992385 AAAAAAATAG
32992395 TATATAT-TATTT
1 TATATATATATTT
32992407 TATATAT-TATTTT
1 TATATATATA-TTT
*
32992420 TACTTATAAATTATATT
1 TA--TATATA-TAT-TT
*
32992437 TATTTATATATTT
1 TATATATATATTT
32992450 TATATATATTATTT
1 TATATATA-TATTT
32992464 T
1 T
32992465 TAAAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 9 0.19
13 14 0.30
14 9 0.19
15 8 0.17
16 1 0.02
17 6 0.13
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATATATATTT
Found at i:32992452 original size:19 final size:19
Alignment explanation
Indices: 32992395--32992459 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
32992385 AAAAAAATAG
32992395 TATATATTATTT-TATATAT
1 TATAT-TTATTTATATATAT
* *
32992414 TATTTTTACTTATA-A-AT
1 TATATTTATTTATATATAT
*
32992431 TATATTTATTTATATATTT
1 TATATTTATTTATATATAT
*
32992450 TATATATATT
1 TATATTTATT
32992460 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 14 0.38
18 7 0.19
19 16 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTTATTTATATATAT
Found at i:32999831 original size:14 final size:16
Alignment explanation
Indices: 32999812--32999848 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
32999802 CGATGTCCTT
32999812 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
32999826 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
32999842 TTT-CATC
1 TTTGCATC
32999849 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:32999848 original size:15 final size:15
Alignment explanation
Indices: 32999812--32999861 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
32999802 CGATGTCCTT
32999812 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
32999826 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
32999842 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
32999855 TTTGCAT
1 TTTGCAT
32999862 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:33008134 original size:89 final size:87
Alignment explanation
Indices: 33008020--33008330 Score: 228
Period size: 89 Copynumber: 3.6 Consensus size: 87
33008010 CAAATCGAAG
* * * * *
33008020 ACATAGTAGATCTGACTTTCTGATGTTCTCACATCAAAGCAGATCCAAGATACCAGATTTGACAT
1 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGCAGATCCAAGATA-CAGATTTGACAT
* *
33008085 CTCCATATTCAAACAGAGACAGAT
65 CTCTATATTCAAA-AGAGACAGAC
* * * *
33008109 ACATAGCAGATCTAACCTTCAGATGTTTTTAC-TGAAA-TAGATCCAAGAT---GATTTGGCAT-
1 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGCAGATCCAAGATACAGATTTGACATC
* * * * * *
33008168 TCTTGTGTTTACAAGGAGCAAATCGAAG
66 TC-TATATTCA-AAAGAG-ACA--G-AC
* * * * *
33008196 ACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCCAAGATAACAGATCT-AGCG
1 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGCAGATCCAAGAT-ACAGATTTGA-CA
* *
33008260 TCTCTATATTCGATAGAGAGCAGAC
64 TCTCTATATTCAAAAGAGA-CAGAC
33008285 ACATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-AAAGCAGATCCAA
1 ACATAGCAGATCTAACCTTCAGATGTTT-TCACATCAAAGCAGATCCAA
33008331 AATGATTTGG
Statistics
Matches: 170, Mismatches: 36, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
82 2 0.01
83 16 0.09
84 4 0.02
86 1 0.01
87 53 0.31
88 9 0.05
89 65 0.38
90 2 0.01
91 1 0.01
92 5 0.03
93 10 0.06
94 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGCAGATCCAAGATACAGATTTGACATC
TCTATATTCAAAAGAGACAGAC
Found at i:33008202 original size:87 final size:86
Alignment explanation
Indices: 33008109--33008633 Score: 487
Period size: 87 Copynumber: 6.0 Consensus size: 86
33008099 AGAGACAGAT
* * *
33008109 ACATAGCAGATCTAACCTTCAGATGTTTTTACTGAAA-TAGATCCAAGATGATTTGGCATTCTTG
1 ACATAGCAGATCTGACCTTCAGATGTTTATACT-AAAGCAGATCCAAGATGATTTGGCA-TCTTG
33008173 TGTTTACAAGGAGCAAATCGAAG
64 TGTTTACAAGGAGCAAATCGAAG
* * * * *
33008196 ACATAGCAGATCTGACTTTTAGATGTTT-TCACATCAAAGCAGATCCAAGATAACAGATCTAGCG
1 ACATAGCAGATCTGACCTTCAGATGTTTAT-AC-T-AAAGCAGATCCAAGAT----GATTTGGCA
* * *
33008260 TCTCTAT-ATT-CGATAGAGAGC--A--G-AC
59 TCT-TGTGTTTAC-A-AG-GAGCAAATCGAAG
* * *
33008285 ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAAATGATTTGGCATCTTTGG
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATC-TTGT
*
33008350 GTTTACAAGAAGCAAATCGAAG
65 GTTTACAAGGAGCAAATCGAAG
* * *
33008372 ACATAGCAGGTCTGACCTTCAGATGTTTATACTAAAGCAGATCCAAAATGATTTGGCATCTTTGG
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATC-TTGT
*
33008437 GTTTACAAGAAGCAAATCGAAG
65 GTTTACAAGGAGCAAATCGAAG
* *
33008459 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCAT-CTTGT
*
33008524 GTTTACAAGGAACAAATCGAAG
65 GTTTACAAGGAGCAAATCGAAG
* * * * ** * * * *
33008546 ACATAGAAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTG
1 ACATAGCAGATCTGACCTTCA-GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATCT-TG
* * *
33008610 TATTGT-CAGGGAACAAATCGAAG
64 TGTT-TACAAGGAGCAAATCGAAG
33008633 A
1 A
33008634 AGCAGATTTG
Statistics
Matches: 372, Mismatches: 42, Indels: 48
0.81 0.09 0.10
Matches are distributed among these distances:
82 3 0.01
83 11 0.03
84 5 0.01
85 1 0.00
86 4 0.01
87 277 0.74
88 8 0.02
89 39 0.10
90 2 0.01
91 1 0.00
92 7 0.02
93 10 0.03
94 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (86 bp):
ACATAGCAGATCTGACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATCTTGTG
TTTACAAGGAGCAAATCGAAG
Found at i:33008230 original size:176 final size:175
Alignment explanation
Indices: 33008007--33008556 Score: 613
Period size: 176 Copynumber: 3.1 Consensus size: 175
33007997 CTTCGACGGA
* *
33008007 GAGCAAATCGAAGACATAGTAGATCTGACTTTCT-GATGTTCTCACATCAAAGCAGATCCAAGAT
1 GAGCAAATCGAAGACATAGCAGATCTGACTTT-TAGATGTTTTCACATCAAAGCAGATCCAAGAT
*
33008071 ACCAGATTTGACATCTCCATATTCAAACAGAGA-CAGATACATAGCAGATCTAACCTTCAGATGT
65 A-CAGATTTGACATCTCCATATTCAAA-AGAGAGCAGACACATAGCAGATCTAACCTTCAGATGT
* *
33008135 TTTTACTGAAATAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
128 TTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
33008183 GAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCCAAGAT-
* * * * *
33008248 ACAGATCT-AGCGTCTCTATATTCGATAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
65 ACAGATTTGA-CATCTCCATATTCAAAAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTT
* *
33008312 TATACT-AAAGCAGATCCAAAATGATTTGGCA-TCTTTGGGTTTACAAG
129 TATACTGAAA-CAGATCCAAGATGATTTGGCATTC-TTGTGTTTACAAG
* * * *
33008359 AAGCAAATCGAAGACATAGCAGGTCTGACCTTCAGATGTTTAT-AC-T-AAAGCAGATCCAA-A-
1 GAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTT-TCACATCAAAGCAGATCCAAGAT
* * *** * * * * *
33008419 A-TGATTTGGCATCTTTGGGT-TTACAAGAAGCAAATC-GAAGACATAGCAGGTCTGACCTTCAG
65 ACAGATTTGACATC--TCCATATT-CAA-AAG-AGAGCAG-ACACATAGCAGATCTAACCTTCAG
* *
33008481 ATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAG
124 ATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
* *
33008533 GAACAAATCGAAGACATAGAAGAT
1 GAGCAAATCGAAGACATAGCAGAT
33008557 TTGGCTTTCA
Statistics
Matches: 320, Mismatches: 38, Indels: 34
0.82 0.10 0.09
Matches are distributed among these distances:
170 7 0.02
171 3 0.01
172 4 0.01
173 4 0.01
174 100 0.31
175 16 0.05
176 184 0.57
177 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (175 bp):
GAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGATCCAAGATA
CAGATTTGACATCTCCATATTCAAAAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTA
TACTGAAACAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
Found at i:33008629 original size:174 final size:174
Alignment explanation
Indices: 33008109--33008633 Score: 557
Period size: 174 Copynumber: 3.0 Consensus size: 174
33008099 AGAGACAGAT
* ** *
33008109 ACATAGCAGATCTAACCTTCAGATGTTTTTACTGAAATAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
33008174 GTTTACAAGGAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTTTCACATCAAAGCAGA
66 GTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTACAC-T-AAAGCAGA
* * * * * *
33008239 TCCAAGATAACAGATCTAGCGTCTCTATATTCGAT-AGAGAGC--A--G-AC
129 TCCAAGAT----GATTTGGCATCTCTGTATT-G-TCAGAGAACAAATCGAAG
* * * *
33008285 ACATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAAATGATTTGGCATCTTTGG
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
33008350 GTTTACAA-GAAGCAAATCGAAGACATAGCAGGTCTGACCTTCAGATGTTTATACTAAAGCAGAT
66 GTTTACAAGGAA-CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTACACTAAAGCAGAT
* * **
33008414 CCAAAATGATTTGGCATCTTTGGGTT-TACA-AGAAGCAAATCGAAG
130 CCAAGATGATTTGGCATCTCTGTATTGT-CAGAGAA-CAAATCGAAG
* *
33008459 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * * * * *
33008524 GTTTACAAGGAACAAATCGAAGACATAGAAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAAAT
66 GTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCA-GATGTTTACACTAAAGCAGAT
* * *
33008588 CTAAGATGATTTGGTATCTCTGTATTGTCAGGGAACAAATCGAAG
130 CCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
33008633 A
1 A
33008634 AGCAGATTTG
Statistics
Matches: 290, Mismatches: 46, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
167 1 0.00
168 3 0.01
169 2 0.01
170 12 0.04
171 1 0.00
173 1 0.00
174 157 0.54
175 11 0.04
176 102 0.35
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (174 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTACACTAAAGCAGATC
CAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
Found at i:33010187 original size:17 final size:17
Alignment explanation
Indices: 33010161--33010199 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33010151 ATATATTATT
* *
33010161 TTATATATTATTTTTAC
1 TTATAAATTATATTTAC
*
33010178 TTATAAATTATATTTAT
1 TTATAAATTATATTTAC
33010195 TTATA
1 TTATA
33010200 TATTTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAAATTATATTTAC
Found at i:33010206 original size:13 final size:13
Alignment explanation
Indices: 33010150--33010219 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 13
33010140 ATAAAAAAAG
33010150 TATATAT-TATTT
1 TATATATATATTT
33010162 TATATAT-TATTTT
1 TATATATATA-TTT
*
33010175 TACTTATAAATTATATT
1 TA--TATATA-TAT-TT
*
33010192 TATTTATATATTT
1 TATATATATATTT
33010205 TATATATATTATTT
1 TATATATA-TATTT
33010219 T
1 T
33010220 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 9 0.19
13 14 0.30
14 9 0.19
15 8 0.17
16 1 0.02
17 6 0.13
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATATATATTT
Found at i:33010207 original size:19 final size:19
Alignment explanation
Indices: 33010150--33010214 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
33010140 ATAAAAAAAG
33010150 TATATATTATTT-TATATAT
1 TATAT-TTATTTATATATAT
* *
33010169 TATTTTTACTTATA-A-AT
1 TATATTTATTTATATATAT
*
33010186 TATATTTATTTATATATTT
1 TATATTTATTTATATATAT
*
33010205 TATATATATT
1 TATATTTATT
33010215 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 14 0.38
18 7 0.19
19 16 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTTATTTATATATAT
Found at i:33010306 original size:16 final size:16
Alignment explanation
Indices: 33010285--33010346 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
33010275 TATATTATCC
33010285 TTCATTATATTTACAT
1 TTCATTATATTTACAT
*
33010301 TTCATTACATATTACAT
1 TTCATTATAT-TTACAT
* *
33010318 TTTATTATATATACAT
1 TTCATTATATTTACAT
*
33010334 AT-ATATATATTTA
1 TTCAT-TATATTTA
33010347 TATTACTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 2 0.05
16 22 0.58
17 14 0.37
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (16 bp):
TTCATTATATTTACAT
Found at i:33010317 original size:17 final size:17
Alignment explanation
Indices: 33010285--33010333 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
33010275 TATATTATCC
33010285 TTCATTATAT-TTACAT
1 TTCATTATATATTACAT
*
33010301 TTCATTACATATTACAT
1 TTCATTATATATTACAT
*
33010318 TTTATTATATA-TACAT
1 TTCATTATATATTACAT
33010334 ATATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
TTCATTATATATTACAT
Found at i:33010390 original size:21 final size:21
Alignment explanation
Indices: 33010333--33010380 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
33010323 TATATATACA
*
33010333 TATATATAT-ATTTATATTACT
1 TATATATATGGTTTATATTA-T
33010354 TAT-TATATGGTTTATATTAT
1 TATATATATGGTTTATATTAT
33010374 TATATAT
1 TATATAT
33010381 TTTGGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATATATGGTTTATATTAT
Found at i:33011305 original size:26 final size:26
Alignment explanation
Indices: 33011276--33011325 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33011266 TGAGCTGTGC
33011276 TTTTAAAAAATATTGTGAAAAAGTGA
1 TTTTAAAAAATATTGTGAAAAAGTGA
* * * *
33011302 TTTTGAGAAATATTTTTAAAAAGT
1 TTTTAAAAAATATTGTGAAAAAGT
33011326 TTAGTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAATATTGTGAAAAAGTGA
Found at i:33018397 original size:27 final size:26
Alignment explanation
Indices: 33018342--33018416 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 26
33018332 GGTTGCCATG
*
33018342 AAGGCTTCCTTCATCAGAGATCGCAACA
1 AAGGCTTCCTT--TCAGAGGTCGCAACA
33018370 AAGGCTTCCATTTCAGAGGTCGTC-ACA
1 AAGGCTTCC-TTTCAGAGGTCG-CAACA
*
33018397 AAGGCTTTCCTTTTAGAGGT
1 AAGGC-TTCCTTTCAGAGGT
33018417 TCGCCATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 26 0.62
28 14 0.33
29 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAGGCTTCCTTTCAGAGGTCGCAACA
Found at i:33022763 original size:3 final size:3
Alignment explanation
Indices: 33022755--33022807 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
33022745 NNNNNNNNNN
*
33022755 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
33022801 ATA ATA A
1 ATA ATA A
33022808 AATTGCTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33023731 original size:20 final size:20
Alignment explanation
Indices: 33023695--33023734 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33023685 TCCTATTGTT
33023695 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
33023715 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
33023735 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:33026077 original size:18 final size:18
Alignment explanation
Indices: 33026050--33026315 Score: 241
Period size: 18 Copynumber: 14.8 Consensus size: 18
33026040 GGAGCCTGAG
33026050 AAGCCTAAAGAACCCGAA
1 AAGCCTAAAGAACCCGAA
* *
33026068 AAGCCCAAAGAACCTGAA
1 AAGCCTAAAGAACCCGAA
* * * *
33026086 AAACCCAAAGAACCTGAG
1 AAGCCTAAAGAACCCGAA
* *
33026104 AAGCCTAAAGTACCAGAA
1 AAGCCTAAAGAACCCGAA
* *
33026122 AAACCAAAAGAACCCGAA
1 AAGCCTAAAGAACCCGAA
* *
33026140 AAGCCTAAAGCACCAGAA
1 AAGCCTAAAGAACCCGAA
* *
33026158 AAACCAAAAGAACCCGAA
1 AAGCCTAAAGAACCCGAA
* * *
33026176 AAACCCAAAGAACCCGGGA
1 AAGCCTAAAGAACCC-GAA
*
33026195 AA-CCTAAACAACCCGAA
1 AAGCCTAAAGAACCCGAA
*
33026212 AAGCCGAAAGAACCCGAA
1 AAGCCTAAAGAACCCGAA
* *
33026230 AAACCCAAAGAACCCGAGA
1 AAGCCTAAAGAACCCGA-A
* *
33026249 AA-CCGAAACAACCCGAA
1 AAGCCTAAAGAACCCGAA
*
33026266 AAGCCGAAAGAACCCGAA
1 AAGCCTAAAGAACCCGAA
* *
33026284 AAGCCTAAGGAACCTGAGA
1 AAGCCTAAAGAACCCGA-A
*
33026303 AA-CCAAAAGAACC
1 AAGCCTAAAGAACC
33026316 ACCACCACCA
Statistics
Matches: 205, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.03
18 188 0.92
19 10 0.05
ACGTcount: A:0.52, C:0.29, G:0.16, T:0.03
Consensus pattern (18 bp):
AAGCCTAAAGAACCCGAA
Found at i:33026084 original size:36 final size:36
Alignment explanation
Indices: 33026056--33026315 Score: 279
Period size: 36 Copynumber: 7.2 Consensus size: 36
33026046 TGAGAAGCCT
* *
33026056 AAAGAACCCGAAAAGCCCAAAGAACCTGAAAAACCC
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
* * * * *
33026092 AAAGAACCTGAGAAGCCTAAAGTACCAGAAAAACCA
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
* * *
33026128 AAAGAACCCGAAAAGCCTAAAGCACCAGAAAAACCA
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
* ** *
33026164 AAAGAACCCGAAAAACCCAAAGAACCCGGGAAACCT
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
* * *
33026200 AAACAACCCGAAAAGCCGAAAGAACCCGAAAAACCC
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
* * * *
33026236 AAAGAACCCGAGAAA-CCGAAACAACCCGAAAAGCCG
1 AAAGAACCCGA-AAAGCCCAAAGAACCCGAAAAACCA
* * * *
33026272 AAAGAACCCGAAAAGCCTAAGGAACCTGAGAAACCA
1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
33026308 AAAGAACC
1 AAAGAACC
33026316 ACCACCACCA
Statistics
Matches: 189, Mismatches: 33, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
35 3 0.02
36 183 0.97
37 3 0.02
ACGTcount: A:0.52, C:0.28, G:0.16, T:0.03
Consensus pattern (36 bp):
AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA
Found at i:33026123 original size:54 final size:54
Alignment explanation
Indices: 33026032--33026315 Score: 291
Period size: 54 Copynumber: 5.3 Consensus size: 54
33026022 TCCTCCTCCC
* * * * * * * *
33026032 AAACCCAAGGAGCCTGAGAAGCCTAAAGAACCCGAAAAGCCCAAAGAACCTGAA
1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
* * * * * *
33026086 AAACCCAAAGAACCTGAGAAGCCTAAAGTACCAGAAAAACCAAAAGAACCCGA-
1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
* * * * * *
33026139 AAAGCCTAAAGCACCAGAAAAACCAAAAGAACCCGAAAAACCCAAAGAACCCGGG
1 AAA-CCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
* *
33026194 AAACCTAAACAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
* * * * * *
33026248 AAACCGAAACAACCCGAAAAGCCGAAAGAACCCGAAAAGCCTAAGGAACCTGAG
1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
*
33026302 AAACCAAAAGAACC
1 AAACCCAAAGAACC
33026316 ACCACCACCA
Statistics
Matches: 198, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 3 0.02
54 192 0.97
55 3 0.02
ACGTcount: A:0.51, C:0.29, G:0.17, T:0.04
Consensus pattern (54 bp):
AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
Found at i:33030033 original size:73 final size:72
Alignment explanation
Indices: 33029890--33030137 Score: 340
Period size: 72 Copynumber: 3.5 Consensus size: 72
33029880 GAAATCATAT
* * *
33029890 ATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTTAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAA
*
33029954 ATCAAAC
66 ACCAAAC
* ** * *
33029961 ATAAACAATTATTGATAAAACTAGCCCTAAGCATAAATAATTAGACCATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAG-ATTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAA
*
33030026 GACCAAAC
65 AACCAAAC
*
33030034 ATAAACAACTATTGATAAAACTAGATTACA-CATAAATAAGTAGAATATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTA-AGCATAAATAAGTAGAACATAAATTCAATATCCAAA
33030098 AACCAAAC
65 AACCAAAC
* *
33030106 ATAAATAACTATTGATAAAACTAG-TTTAGCAT
1 ATAAACAACTATTGATAAAACTAGATTAAGCAT
33030138 TGTTGTTTAG
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
70 1 0.01
71 27 0.18
72 63 0.41
73 63 0.41
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:33030581 original size:18 final size:18
Alignment explanation
Indices: 33030558--33030605 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
33030548 TCTATCAATG
33030558 TGAACATCATTTGAAATC
1 TGAACATCATTTGAAATC
33030576 TGAACATCATTTGAAATC
1 TGAACATCATTTGAAATC
*
33030594 TGAATATCATTT
1 TGAACATCATTT
33030606 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (18 bp):
TGAACATCATTTGAAATC
Found at i:33031057 original size:11 final size:11
Alignment explanation
Indices: 33031041--33031078 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
33031031 TAGGAAGATA
33031041 TTATTTTATTT
1 TTATTTTATTT
*
33031052 TTA-TTTACTT
1 TTATTTTATTT
33031062 TTATTTTATTT
1 TTATTTTATTT
*
33031073 TCATTT
1 TTATTT
33031079 ATTAAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:33034441 original size:3 final size:3
Alignment explanation
Indices: 33034433--33034502 Score: 117
Period size: 3 Copynumber: 23.7 Consensus size: 3
33034423 ATTTACTTAC
33034433 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33034481 TAT TAT TA- TAT T-T TAT CTAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TA
33034503 ATTGAGATAG
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:33034643 original size:21 final size:21
Alignment explanation
Indices: 33034619--33034660 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33034609 ATTAGTTAAG
* *
33034619 TAAATAAAATGAAATAAAGAA
1 TAAATAAAATAAAAGAAAGAA
33034640 TAAATAAAATAAAAGAAAGAA
1 TAAATAAAATAAAAGAAAGAA
33034661 AAACAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAATAAAATAAAAGAAAGAA
Found at i:33036124 original size:13 final size:13
Alignment explanation
Indices: 33036088--33036124 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33036078 TGATAGTTTG
*
33036088 GTATGAATTTATAT
1 GTATG-ATTTGTAT
33036102 GTATGATTTGTAT
1 GTATGATTTGTAT
33036115 GTATGATTTG
1 GTATGATTTG
33036125 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:33036631 original size:20 final size:20
Alignment explanation
Indices: 33036606--33036663 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
33036596 TGCCCATGGG
*
33036606 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
33036626 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
33036646 CAGGCCACACAGGCATGT
1 CAGGCCACACGGGCATGT
33036664 GTCCCTATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.36, G:0.29, T:0.12
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:33037662 original size:54 final size:53
Alignment explanation
Indices: 33037480--33037687 Score: 217
Period size: 53 Copynumber: 3.9 Consensus size: 53
33037470 ATATATCATA
* * * * ** * *
33037480 CCGATGCCATATCCTGGATATGATCTTGCAC-AGAAACACTTATCACTTTTCT
1 CCGATGCCATAGCCTAGCTATGGTCTTATACGAGAATCACTTATCACTTTTAT
* *
33037532 CCGATGCCATAGCCTAGCTATGGTCTTATACG-G-ATCGCTTGTATCACTTTAAT
1 CCGATGCCATAGCCTAGCTATGGTCTTATACGAGAATCAC-T-TATCACTTTTAT
* * * *
33037585 CCGAAGCCATAACCTAGTTATGGTCTTATACGAGAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCTAGCTATGGTCTTATACGAGAATCACTTATCACTT-TTAT
*
33037639 CCGATGCCATAGCCTAGCTATGGTCTTATACGA-ATATCGCTTATCACTT
1 CCGATGCCATAGCCTAGCTATGGTCTTATACGAGA-ATCACTTATCACTT
33037688 GTTGCCATAG
Statistics
Matches: 129, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
51 3 0.02
52 27 0.21
53 48 0.37
54 47 0.36
55 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (53 bp):
CCGATGCCATAGCCTAGCTATGGTCTTATACGAGAATCACTTATCACTTTTAT
Found at i:33037777 original size:17 final size:16
Alignment explanation
Indices: 33037751--33037798 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
33037741 ATAGAAGTAC
*
33037751 TCAATCTGATATTTCAT
1 TCAATTTGATATTTC-T
33037768 TCAATTTGATCATTTCT
1 TCAATTTGAT-ATTTCT
*
33037785 TCAATTTCATATTT
1 TCAATTTGATATTT
33037799 TTACATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 19 0.68
18 5 0.18
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.52
Consensus pattern (16 bp):
TCAATTTGATATTTCT
Found at i:33042838 original size:17 final size:17
Alignment explanation
Indices: 33042816--33042848 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33042806 TATTTCATAA
*
33042816 CTATTGAAATTGAGAAG
1 CTATTGAAATTCAGAAG
33042833 CTATTGAAATTCAGAA
1 CTATTGAAATTCAGAA
33042849 TTTCCACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (17 bp):
CTATTGAAATTCAGAAG
Found at i:33045066 original size:30 final size:30
Alignment explanation
Indices: 33045032--33045109 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
33045022 AATATAAGTC
* *
33045032 AGCTTGTGTAAGAAACTTTGATAAAATGTT
1 AGCTTGTGTAAGAAACTTTAATAAAATGCT
* * ** *
33045062 AGCTTGTGTGAGTAACCCTAATATAATGCT
1 AGCTTGTGTAAGAAACTTTAATAAAATGCT
*
33045092 AGCTTGTGTAAGCAACTT
1 AGCTTGTGTAAGAAACTT
33045110 ATTCACCTAG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (30 bp):
AGCTTGTGTAAGAAACTTTAATAAAATGCT
Found at i:33053000 original size:15 final size:16
Alignment explanation
Indices: 33052975--33053004 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33052965 TTTGTTTGTC
33052975 TTATATTATATTTTAG
1 TTATATTATATTTTAG
33052991 TTAT-TTATATTTTA
1 TTATATTATATTTTA
33053005 AATGTTACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTATATTATATTTTAG
Found at i:33060059 original size:23 final size:24
Alignment explanation
Indices: 33060029--33060080 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
33060019 ATTGACCCGC
33060029 TATG-AGTATG-TTCTTGGATTAT
1 TATGTAGTATGTTTCTTGGATTAT
33060051 TATGTAGTATGTTTCTTGGATTAT
1 TATGTAGTATGTTTCTTGGATTAT
33060075 TATGTA
1 TATGTA
33060081 ATTGTCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 4 0.14
23 6 0.21
24 18 0.64
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.52
Consensus pattern (24 bp):
TATGTAGTATGTTTCTTGGATTAT
Found at i:33063114 original size:19 final size:19
Alignment explanation
Indices: 33063061--33063137 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
33063051 TATCTTTTTA
33063061 AATTTTGAATGTTTTATTATT
1 AATTTTGAA--TTTTATTATT
**
33063082 AATTTTGAGCTTTATTATT
1 AATTTTGAATTTTATTATT
33063101 AATTATT-AATTTTA-TATT
1 AATT-TTGAATTTTATTATT
33063119 -A-TTTGAAATTTATATTATT
1 AATTTTG-AATTT-TATTATT
33063138 TTTATTGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 2 0.04
16 1 0.02
17 6 0.13
18 6 0.13
19 22 0.47
20 2 0.04
21 8 0.17
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.60
Consensus pattern (19 bp):
AATTTTGAATTTTATTATT
Found at i:33076266 original size:28 final size:28
Alignment explanation
Indices: 33076234--33076303 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
33076224 AATGAGATTG
33076234 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
33076262 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
33076290 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33076304 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:33078401 original size:25 final size:25
Alignment explanation
Indices: 33078359--33078465 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
33078349 TAAATCTGTA
33078359 AGTTTTCTAAAAAGCCTTAGTCGCT
1 AGTTTTCTAAAAAGCCTTAGTCGCT
*
33078384 AGTTTTCTAGAAAA-CCTTAGTGGCT
1 AGTTTTCTA-AAAAGCCTTAGTCGCT
* * * * * *
33078409 AATCTTCTAAAAAGTCTTAATGGCA
1 AGTTTTCTAAAAAGCCTTAGTCGCT
* *
33078434 AATTTTCTAAAAAGCCTTAGTGGCT
1 AGTTTTCTAAAAAGCCTTAGTCGCT
*
33078459 AATTTTC
1 AGTTTTC
33078466 GGGATAGCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 4 0.06
25 62 0.89
26 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (25 bp):
AGTTTTCTAAAAAGCCTTAGTCGCT
Found at i:33078440 original size:50 final size:50
Alignment explanation
Indices: 33078363--33078461 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
33078353 TCTGTAAGTT
* * *
33078363 TTCTAAAAAGCCTTAGTCGCTAGTTTTCTAGAAAA-CCTTAGTGGCTAATC
1 TTCTAAAAAGCCTTAATCGCAAATTTTCTA-AAAAGCCTTAGTGGCTAATC
* *
33078413 TTCTAAAAAGTCTTAATGGCAAATTTTCTAAAAAGCCTTAGTGGCTAAT
1 TTCTAAAAAGCCTTAATCGCAAATTTTCTAAAAAGCCTTAGTGGCTAAT
33078462 TTTCGGGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 4 0.09
50 39 0.91
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (50 bp):
TTCTAAAAAGCCTTAATCGCAAATTTTCTAAAAAGCCTTAGTGGCTAATC
Found at i:33079400 original size:16 final size:16
Alignment explanation
Indices: 33079379--33079410 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33079369 AGTATTAATT
33079379 ACTTTGTTATTTGCTA
1 ACTTTGTTATTTGCTA
33079395 ACTTTGTTATTTGCTA
1 ACTTTGTTATTTGCTA
33079411 CATGAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (16 bp):
ACTTTGTTATTTGCTA
Found at i:33079999 original size:19 final size:19
Alignment explanation
Indices: 33079963--33080002 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33079953 ATATTGAGTG
**
33079963 ATAAAATTTAATTTAAAAA
1 ATAAAATTTAATGGAAAAA
33079982 ATAAAATTTAATGGAAAAA
1 ATAAAATTTAATGGAAAAA
33080001 AT
1 AT
33080003 TAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAAAATTTAATGGAAAAA
Found at i:33080045 original size:29 final size:28
Alignment explanation
Indices: 33079972--33080045 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
33079962 GATAAAATTT
*
33079972 AATTTAAAAAATAAAA-TTTAATGGAAA
1 AATTTAATAAATAAAAGTTTAATGGAAA
* * * *
33079999 AAATTAATAAATTTAAAGTTTAGTGGTAA
1 AATTTAATAAA-TAAAAGTTTAATGGAAA
33080028 AATTTAATAACATAAAAG
1 AATTTAATAA-ATAAAAG
33080046 CTAAGTGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 9 0.24
28 4 0.11
29 23 0.62
30 1 0.03
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (28 bp):
AATTTAATAAATAAAAGTTTAATGGAAA
Found at i:33081997 original size:22 final size:21
Alignment explanation
Indices: 33081950--33082006 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
33081940 ATATAATAGT
*
33081950 AAAATGATAATAAAATAGTGAG
1 AAAATAATAA-AAAATAGTGAG
33081972 AAAATAATAAAAAATAGT-AG
1 AAAATAATAAAAAATAGTGAG
33081992 CAAAA-AAGTAAAAAA
1 -AAAATAA-TAAAAAA
33082007 AAGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.12
21 19 0.59
22 9 0.28
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (21 bp):
AAAATAATAAAAAATAGTGAG
Found at i:33089826 original size:19 final size:19
Alignment explanation
Indices: 33089799--33089842 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
33089789 GAGATATTGT
*
33089799 TGAGGAAAGTTTGATTTGG
1 TGAGAAAAGTTTGATTTGG
33089818 TGAGAAAAGTTTGATTTGG
1 TGAGAAAAGTTTGATTTGG
33089837 TGAGAA
1 TGAGAA
33089843 TATTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (19 bp):
TGAGAAAAGTTTGATTTGG
Found at i:33096408 original size:72 final size:72
Alignment explanation
Indices: 33096321--33096459 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
33096311 AAAAACCATA
* *
33096321 AAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATACAAAATTAA-CTATTTAAATTACA
1 AAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATA-AAAATGAAGCTATTTAAATTACA
33096385 AAAAAATT
65 AAAAAATT
* * * * * *
33096393 AAATTGTTAATTAAAATGCCAAAAAATTCATTACATAAATAAATATGAAGTTATTTATATTACAA
1 AAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATAAAAATGAAGCTATTTAAATTACAA
33096458 AA
66 AA
33096460 CCCCCTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 6 0.10
72 52 0.90
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (72 bp):
AAATTGATAAATAAAATGCCAAAAAAGTCATTACATAAATAAAAATGAAGCTATTTAAATTACAA
AAAAATT
Found at i:33096671 original size:33 final size:33
Alignment explanation
Indices: 33096629--33096713 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
33096619 ATGAACTTGA
* * *
33096629 GCCGGGAGGAATGGAGTACGGCGATTGATACGG
1 GCCGGGAGGAATAGAGTACGGCGATGGATACAG
* *
33096662 GCCGGGAGGAGTAGAGTACGGCGGTGGATACAG
1 GCCGGGAGGAATAGAGTACGGCGATGGATACAG
* **
33096695 GCCGGAAGGAGCAGAGTAC
1 GCCGGGAGGAATAGAGTAC
33096714 TAAGATGGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.46, T:0.12
Consensus pattern (33 bp):
GCCGGGAGGAATAGAGTACGGCGATGGATACAG
Found at i:33099205 original size:207 final size:208
Alignment explanation
Indices: 33098949--33099418 Score: 789
Period size: 207 Copynumber: 2.3 Consensus size: 208
33098939 TTAATTTTAA
*
33098949 TAATACATACTTCATCCAGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAA
1 TAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAA
*
33099014 TAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATT
66 TAAAATTATAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATGAGATACATGTTTTATT
* *
33099079 AGGTATAAGTATCTAAAAATTTGTTTTTGTAATGTGATACATGC-TTAATATATATATAATCATA
131 ACGTATAAGTATCTAAAAATTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
* *
33099143 TTAGTGAATTTGC
196 TTACTGAATCTGC
* * * *
33099156 TAATGCGTACTTCATCCGGATAAAGTTTACATTATTAAAATTAAATTAAAATATTAAATAAGAAA
1 TAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAA
** *
33099221 TAAAATTATAAAGTAATATGTTATTTGGGAAATAACAATTATTGTAATGAGATACATGTTTTATT
66 TAAAATTATAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATGAGATACATGTTTTATT
* *
33099286 ACGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
131 ACGTATAAGTATCTAAAAATTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
33099351 TTACTGAATCTGC
196 TTACTGAATCTGC
*
33099364 TAATACATACTTCATCCGGATAAAATATGCATTATTAAAATTAAATTAAAATATT
1 TAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATT
33099419 TTTTAAAAAC
Statistics
Matches: 242, Mismatches: 20, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
207 162 0.67
208 80 0.33
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (208 bp):
TAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAA
TAAAATTATAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATGAGATACATGTTTTATT
ACGTATAAGTATCTAAAAATTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
TTACTGAATCTGC
Found at i:33099867 original size:2 final size:2
Alignment explanation
Indices: 33099855--33099883 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33099845 TTTAACATCA
33099855 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33099884 GTTCATAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33100798 original size:27 final size:29
Alignment explanation
Indices: 33100764--33100823 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
33100754 TATATATTTA
33100764 AATATTTTTA-AT-AAAAATAAAAAAAAT
1 AATATTTTTATATAAAAAATAAAAAAAAT
* *
33100791 AATA-TTTTATTTAAAAAATAAAAAAATT
1 AATATTTTTATATAAAAAATAAAAAAAAT
33100819 AATAT
1 AATAT
33100824 AAAATAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 5 0.18
28 18 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AATATTTTTATATAAAAAATAAAAAAAAT
Found at i:33102497 original size:15 final size:14
Alignment explanation
Indices: 33102460--33102501 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
33102450 ACCATTTACC
*
33102460 CTTTGTTTTTTGTT
1 CTTTATTTTTTGTT
33102474 CTTTATTTTTTGTT
1 CTTTATTTTTTGTT
*
33102488 CTATTCTTTTTTGT
1 CT-TTATTTTTTGT
33102502 GCTCATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.05, C:0.10, G:0.10, T:0.76
Consensus pattern (14 bp):
CTTTATTTTTTGTT
Found at i:33108214 original size:5 final size:5
Alignment explanation
Indices: 33108204--33108237 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
33108194 TTGTGTGTTC
*
33108204 TTTAT TTTAT TTTATT TTTCT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
33108238 TAACACACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:33108229 original size:16 final size:16
Alignment explanation
Indices: 33108208--33108238 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33108198 GTGTTCTTTA
33108208 TTTTATTTTATTTTTC
1 TTTTATTTTATTTTTC
33108224 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
33108239 AACACACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTATTTTTC
Found at i:33119478 original size:3 final size:3
Alignment explanation
Indices: 33119472--33119512 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33119462 GCAATTGTTG
33119472 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33119513 TCTTTTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33121370 original size:18 final size:18
Alignment explanation
Indices: 33121347--33121429 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
33121337 TATTTTAATG
33121347 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
* *
33121365 AATTAT-TTATTAGA--TA
1 AATTATATAATCA-ATTTA
*
33121381 AA--ATGATAAT-AATTTTT
1 AATTAT-ATAATCAA-TTTA
33121398 AATTATATAATCAATTTA
1 AATTATATAATCAATTTA
33121416 AATTATATAATCAA
1 AATTATATAATCAA
33121430 CAGGCCAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 7 0.14
17 7 0.14
18 29 0.57
19 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTATATAATCAATTTA
Found at i:33129099 original size:22 final size:23
Alignment explanation
Indices: 33129069--33129125 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
33129059 AAAAGCTATC
33129069 TACAAAATCA-A-ATCTCTAAGAT
1 TACAAAATCATATAT-TCTAAGAT
* *
33129091 TACAGAATCATATATTCTATGAT
1 TACAAAATCATATATTCTAAGAT
*
33129114 TAC-ATATCATAT
1 TACAAAATCATAT
33129126 CTAAGATTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 16 0.55
23 11 0.38
24 2 0.07
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (23 bp):
TACAAAATCATATATTCTAAGAT
Found at i:33129114 original size:23 final size:22
Alignment explanation
Indices: 33129083--33129125 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
33129073 AAATCAAATC
33129083 TCTAAGATTACAGAATCATATAT
1 TCTAAGATTACA-AATCATATAT
* *
33129106 TCTATGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
33129126 CTAAGATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATAT
Found at i:33130388 original size:16 final size:16
Alignment explanation
Indices: 33130367--33130397 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33130357 TTCACTATTG
*
33130367 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
33130383 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
33130398 ACATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:33135522 original size:38 final size:38
Alignment explanation
Indices: 33135466--33135596 Score: 147
Period size: 38 Copynumber: 3.4 Consensus size: 38
33135456 AGAAACATAA
* *
33135466 TGTTATTCGGGCTTTGTGCCTAGCAAGCTTCGTGTAGG
1 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGTAGG
* *
33135504 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGTG-ACAG
1 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGTA-GG
* * ** *
33135542 TATTATTCAGGCTTTGCACCTAGCAGGCTTTGTGTCGG
1 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGTAGG
**
33135580 TGTTATTTAGGCTTTGT
1 TGTTATTCGGGCTTTGT
33135597 ACATTGCAGG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 76 0.99
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.39
Consensus pattern (38 bp):
TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGTAGG
Found at i:33135606 original size:38 final size:38
Alignment explanation
Indices: 33135524--33135609 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
33135514 GCTCTGTGCC
*
33135524 TAGCAGGCTTTGTGACAGTATTATTCAGGCTTTGCACC
1 TAGCAGGCTTTGTGACAGTATTATTCAGGCTTTGCACA
* * * * *
33135562 TAGCAGGCTTTGTGTCGGTGTTATTTAGGCTTTGTACA
1 TAGCAGGCTTTGTGACAGTATTATTCAGGCTTTGCACA
*
33135600 TTGCAGGCTT
1 TAGCAGGCTT
33135610 GTGCCGATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.38
Consensus pattern (38 bp):
TAGCAGGCTTTGTGACAGTATTATTCAGGCTTTGCACA
Found at i:33135606 original size:76 final size:76
Alignment explanation
Indices: 33135468--33135609 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 76
33135458 AAACATAATG
* ** * * *
33135468 TTATTCGGGCTTTGTGCCTAGCAAGCTTCGTGTAGGTGTTATTCGGGCTCTGTGCCTAGCAGGCT
1 TTATTCAGGCTTTGCACCTAGCAAGCTTCGTGTAGGTGTTATTCAGGCTCTGTACATAGCAGGCT
33135533 TTGTGACAGTA
66 TTGTGACAGTA
* * * * * *
33135544 TTATTCAGGCTTTGCACCTAGCAGGCTTTGTGTCGGTGTTATTTAGGCTTTGTACATTGCAGGCT
1 TTATTCAGGCTTTGCACCTAGCAAGCTTCGTGTAGGTGTTATTCAGGCTCTGTACATAGCAGGCT
33135609 T
66 T
33135610 GTGCCGATGT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 54 1.00
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (76 bp):
TTATTCAGGCTTTGCACCTAGCAAGCTTCGTGTAGGTGTTATTCAGGCTCTGTACATAGCAGGCT
TTGTGACAGTA
Found at i:33138241 original size:22 final size:23
Alignment explanation
Indices: 33138211--33138259 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33138201 AAAAGCCATA
33138211 TACAAAATCA-A-ATCTCTAAAAT
1 TACAAAATCATATAT-TCTAAAAT
* *
33138233 TACAGAATCATATATTCTAAGAT
1 TACAAAATCATATATTCTAAAAT
33138256 TACA
1 TACA
33138260 TGTCATATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (23 bp):
TACAAAATCATATATTCTAAAAT
Found at i:33138692 original size:13 final size:12
Alignment explanation
Indices: 33138663--33138694 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
33138653 TATATTATCA
33138663 TTTTTATGAATT
1 TTTTTATGAATT
33138675 TTTTTATGAATT
1 TTTTTATGAATT
33138687 TATTTTAT
1 T-TTTTAT
33138695 TCAAATAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
TTTTTATGAATT
Found at i:33138920 original size:13 final size:13
Alignment explanation
Indices: 33138902--33138928 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33138892 AAAGATATAA
33138902 AAAAACATATTGT
1 AAAAACATATTGT
33138915 AAAAACATATTGT
1 AAAAACATATTGT
33138928 A
1 A
33138929 GAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAAACATATTGT
Found at i:33140986 original size:35 final size:34
Alignment explanation
Indices: 33140946--33141017 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
33140936 CATGCTTCAC
* *
33140946 TAATTA-TATTTTTTTATAATTATGAAAATGTCAAA
1 TAATTATTA-TTTCTTACAATTATGAAAATGT-AAA
**
33140981 TAATTATTATTTCTTACAATTATTCAAATGTAAA
1 TAATTATTATTTCTTACAATTATGAAAATGTAAA
33141015 TAA
1 TAA
33141018 AAAATTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 6 0.19
35 24 0.75
36 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (34 bp):
TAATTATTATTTCTTACAATTATGAAAATGTAAA
Found at i:33148047 original size:185 final size:185
Alignment explanation
Indices: 33147731--33148105 Score: 619
Period size: 185 Copynumber: 2.0 Consensus size: 185
33147721 TAAATATGAT
*
33147731 ATAAAAGTTCGAAAAGACAAAAGTGCTATCATAATAGTATTAATTATAATCTTAAAAAATAGATA
1 ATAAAAGTACGAAAAGACAAAAGTGCTATCATAATAGTATTAATTATAATCTTAAAAAATAGATA
* *
33147796 TATCTGTAATTTCATAATTGAGTTGGTGACCGAGTTAAAGGTGACAACAACTCAATAAAATGCTT
66 TATCCGTAATTTCATAATTGAGTTGGTGACCGACTTAAAGGTGACAACAACTCAATAAAATGCTT
33147861 AAATATAAGTATTAGATGTACTATAGATTTTGCTT-CCAATGCAAGAGGATGTGAG
131 AAATATAAGTATTAGATGTACTATAGATTTTG-TTACCAATGCAAGAGGATGTGAG
* * * * *
33147916 CTAAAAGTACGAAAAGACAAAAGTGTTATCATAATAGTATTAATTGTAATC-TAAAAGAATGGGT
1 ATAAAAGTACGAAAAGACAAAAGTGCTATCATAATAGTATTAATTATAATCTTAAAA-AATAGAT
* *
33147980 ATATCCGTAATTTCATAATTGAGTTGGTGACCGACTTAAAGGTGACACCAACTCAATAAAGTGCT
65 ATATCCGTAATTTCATAATTGAGTTGGTGACCGACTTAAAGGTGACAACAACTCAATAAAATGCT
*
33148045 TAAATATAAGTATTAGATGTACTATAGATTTTGTTACCAATGTAAGAGGATGTGAG
130 TAAATATAAGTATTAGATGTACTATAGATTTTGTTACCAATGCAAGAGGATGTGAG
33148101 ATAAA
1 ATAAA
33148106 GCGTGTTTAT
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
184 7 0.04
185 169 0.96
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (185 bp):
ATAAAAGTACGAAAAGACAAAAGTGCTATCATAATAGTATTAATTATAATCTTAAAAAATAGATA
TATCCGTAATTTCATAATTGAGTTGGTGACCGACTTAAAGGTGACAACAACTCAATAAAATGCTT
AAATATAAGTATTAGATGTACTATAGATTTTGTTACCAATGCAAGAGGATGTGAG
Found at i:33150632 original size:21 final size:21
Alignment explanation
Indices: 33150608--33150672 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
33150598 AAGTCTAGCT
33150608 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
33150629 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
33150647 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
33150668 GAAGC
1 GAAGC
33150673 CCGGAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Done.